<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Hi Lowie,<div><span class="Apple-tab-span" style="white-space:pre"> </span>On Linux using bash, type this in your shell window before starting Chimera (from that same shell window) to use 2 CPUs (obviously, use a higher number if you want to use more CPUs):</div><div><br></div><div>MMTK_ENERGY_THREADS=2</div><div>export MMTK_ENERGY_THREADS</div><div><br></div><div><span class="Apple-tab-span" style="white-space:pre"> </span>If you want to have MMTK in Chimera use multiple CPUs always, put those lines in your .bashrc and they will apply whenever you start a new shell.</div><div><br></div><div>--Eric</div><div><br><div><div>On Jun 15, 2012, at 6:24 AM, A-A_lowie li wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite">Dear Prof. Eric & other team member:<div><br></div><div> First, thanks for your reply and help.</div><div> As for the platform of my computer, here is the basic information: </div><div> </div><div> Ubuntu, Release 12.04 (precise) 64-bit</div>
<div> Kernel Linux 3.2.0-24-generic</div><div> GNOME 3.4.1</div><div> Intel® Core™ i7 CPU 860 @ 2.80GHz × 8</div><div> Memory:5.8G</div><div><br></div><div> As for the shell, i usually use bash :)</div>
<div> Please let me know how to change the <span style="white-space:pre-wrap">MMTK_ENERGY_THREADS parameter? </span></div><div><span style="white-space:pre-wrap"><br></span></div><div> Sincerely thanks for your help.</div>
<div><br></div><div>Lowie <br><br><br><div class="gmail_quote">On Fri, Jun 15, 2012 at 1:51 AM, Eric Pettersen <span dir="ltr"><<a href="mailto:pett@cgl.ucsf.edu" target="_blank">pett@cgl.ucsf.edu</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div style="word-wrap:break-word">Hi Lowie,<div><span style="white-space:pre-wrap"> </span>You don't have to install MMTK yourself. It is bundled with Chimera. Also, as this post says:</div>
<div><br></div><div><a href="http://plato.cgl.ucsf.edu/pipermail/chimera-users/2010-September/005499.html" target="_blank">[Chimera-users] Parallel run</a></div><div><br></div><div>it depends on your platform and personal configuration. So, what platform do you use (Windows/Linux/Mac) and if it's Linux, what shell do you use?</div>
<div><br></div><div>--Eric</div><div><br></div><div><div><span style="text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;font-size:16px;white-space:normal;font-family:Helvetica;word-spacing:0px"><div style="margin-top:0px;margin-right:0px;margin-bottom:0px;margin-left:0px">
<font face="Helvetica" size="5" style="font:normal normal normal 16px/normal Helvetica"> Eric Pettersen</font></div><div style="margin-top:0px;margin-right:0px;margin-bottom:0px;margin-left:0px"><font face="Helvetica" size="5" style="font:normal normal normal 16px/normal Helvetica"> UCSF Computer Graphics Lab</font></div>
<div style="margin-top:0px;margin-right:0px;margin-bottom:0px;margin-left:0px"><font face="Helvetica" size="5" style="font:normal normal normal 16px/normal Helvetica"> <a href="http://www.cgl.ucsf.edu/" target="_blank">http://www.cgl.ucsf.edu</a></font></div>
<br></span></div><div><div><div class="h5"><div>On Jun 14, 2012, at 6:56 AM, A-A_lowie li wrote:</div><br></div></div><blockquote type="cite"><div><div class="h5"><div>Dear Sir: </div><div><br></div><div> I am a new user of Chimera, but immediately attracted by this handy software Chimera.</div>
<div><br></div><div> Since my model requires a lot of computation time in energy minimization, could you please how to set up the environment for parallel computation of energy minimization in Chimera? </div>
<div><br></div><div> On one website, it was said, MMTK ENERGY THREADS could be reset for parallel computation. </div><div><br></div><div> After installation of MMTK, I am confused on how to change parameter in MMTK, and recompile Chimera (or change Chimera settings ).</div>
<div><br></div><div> Could you please give me more details about how to set MMTK ENERGY THREADS in Chimera? </div><div><br></div><div> Sincerely thanks for your advice. </div><div><br></div><div>Lowie</div><div>
<br></div><div><br></div>-- <br>Without dream, life is incomplete!<br></div></div>
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</blockquote></div><br></div><br><br></div></blockquote></div><br><br clear="all"><div><br></div>-- <br>Without dream, life is incomplete!<br>
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